Evidence of early circulation of SARS-CoV-2 in France: findings from the population-based “CONSTANCES” cohort

Abstract

Using serum samples routinely collected in 9144 adults from a French general population-based cohort, we identified 353 participants with a positive anti-SARS-CoV-2 IgG test, among whom 13 were sampled between November 2019 and January 2020 and were confirmed by neutralizing antibodies testing. Investigations in 11 of these participants revealed experience of symptoms possibly related to a SARS-CoV-2 infection or situations at risk of potential SARS-CoV-2 exposure. This suggests early circulation of SARS-CoV-2 in Europe.

Introduction

The first identified cases of COVID-19 were detected on December 8, 2019, in Wuhan, China and the first documented case in Europe was reported retrospectively in France in one patient with a diagnosis of pneumonia and a positive SARS-CoV-2 RT-PCR result on December 27, 2019 [1]. By April 4, 2020, local community transmission was reported in all continents and over 1 million cases of COVID-19 had been confirmed worldwide. Although dedicated surveillance and contact tracing did not identify local transmission before the second half of February in Europe, there is accumulated evidence that SARS-CoV-2 circulated in early January 2020 in the East of France [2] and environmental studies suggest that the virus could have been present in December 2019 in Northern Italy [3]. A recent investigation of the presence of SARS-CoV-2 antibodies in 959 adults participating to a trial in Italy with blood samples collected between September 2019 to February 2020 identified 111 (11.6%) samples with a positive receptor-binding protein specific enzyme-linked immunosorbent assay (ELISA), among which 4 samples collected in October, 1 in November and 1 in February were also positive in a qualitative microneutralization assay [4]. This indicates that SARS-CoV-2 could have been present in Italy since the beginning of autumn 2019. However, information on antibody responses at the early stage of the SARS-CoV-2 spread in other European countries or worldwide remains scarce.

Participants and methods

We explored the serological status for SARS-CoV-2 antibodies in participants from the “CONSTANCES” cohort. Briefly, CONSTANCES is a general population-based cohort made up of a nationwide representative sample of 215,000 adults aged 18 to 69 at inclusion. Inclusion started in 2012, and serum samples are regularly collected during the follow-up of participants for future analyses and stored in a centralized biobank. A complete description of the cohort design can be found in [5]. The cohort received ethical approval and all participants provided written consent to the cohort and additional consent to the current study.

We selected all 9144 serum samples collected between November 4, 2019 and March 16, 2020 in participants living in the 12 mainland French regions. All samples were centralized to the virology laboratory (Unité des virus Émergents, Marseille, France) for serological analysis. The serological analysis was performed using a commercial Elisa test (Euroimmun^®, Lübeck, Germany) to detect anti-SARS-CoV-2 antibodies (IgG) directed against the S1 domain of the spike protein of the virus (ELISA-S). In accordance with the manufacturer’s instructions a test was considered to be ELISA-S positive with an optical density ratio ≥ 1.1, indeterminate between 0.8 and 1.1, and negative, < 0.8. All samples with an ELISA-S test ≥ 0.7 were also tested with an in-house micro-neutralization assay to detect neutralizing anti-SARS-CoV-2 antibodies (SN), as described elsewhere [6]. A SN titer ≥ 40 was considered to be positive. Six replicates were performed to confirm positive SN.

Participants with both ELISA-S and SN positive tests in serum sampled before February 1, 2020 were interviewed to identify potential exposure to SARS-CoV-2 infection. A trained investigator collected standardized information on clinical details (in the participant and her/his relatives), history of possible exposure (notably history of travel in Asia), and any remarkable event in close contacts (e.g. unexplained pneumonia).

Results

Participants were aged 55 (min: 19, max: 79) years at sample collection; 4623 (51%) were female; 1503 (16%) were living in Ile de France, 935 (10%) in Grand-Est—these two regions being the French regions with the highest incidences of hospitalization for COVID-19 during the first semester 2020, 6706 (73%) were living in the other 10 mainland regions.

Three-hundred and fifty-three (3.9%) participants were ELISA-S positive, 138 were undetermined and 8653 were negative (undetermined and negative, 96.1%). The proportion of ELISA-S positive increased from 1.9% (42 of 2218) in November and 1.3% (20 of 1534) in December to 5.0% (114 of 2268) in January, 5.2% (114 of 2179) in February and 6.7% (63 or 945) in the first half of March (P < 0.001, Trend test; Fig. 1).

Fig. 1

Number of blood samples tested each week for anti-SARS-CoV-2 antibodies by ELISA-S IgG test (horizontal bars) and percentages of ELISA-S positive test (red dots, with exact 95% Confidence Interval) in adult participants from the CONSTANCES cohort, France

Neutralizing antibodies were detected in 44 (0.48%) participants (23 with a titer of 40, 12 with a titer of 80, 9 with a titer of 160), were undetermined in 15 participants, negative in 498 and not done in 8597 (Fig. 2). Strikingly, 13 participants with positive ELISA-S and SN tests had been sampled between November 5, 2019 and January 30, 2020. Table 1 describes the serological results in these 13 participants, among whom 11 were interviewed. Six of those interviewed did not report any symptom during the weeks preceding the sample collection. Five participants experienced signs of viral respiratory illnesses, and 8 had close contact with persons who exhibited such signs or reported situations at risk of potential SARS-CoV-2 exposure. Of note, participant #7 who was tested positive on Nov 29, 2020 had a second serological sample collected in July 2020 with a positive ELISA-S test and negative SN test—this participant also tested positive in SARS-CoV-2 RT-PCR in September 2020 for new symptoms suggesting a possible reinfection.

Fig. 2

Participants with a positive ELISA-S or a positive SN anti-SARS-CoV-2 test in the CONSTANCES cohort

Table 1 Participants with positive ELISA-S and positive SN on blood samples collected between November 2019 and January 2020

Discussion

This report suggests that SARS-CoV-2 infection may have occurred as early as November 2019 in France. In several participants with both ELISA-S and SN positive results, we identified symptoms, history of possible exposures, or specific events compatible with early SARS-CoV-2 infection.

The critical issue is whether these findings might result from a lack of specificity of our serological methods. The proportion of ELISA-S positive reported may look overestimated given the time period the samples were collected. We used manufacturer-defined cutoff points for ELISA-S positivity, but the test specificity and the positive predictive values can increase by using other higher cut-off values [7]. A cut-off of 2.5 was shown to be 100% specific and would have led to select only 2 positive participants out of 13. However, all positive ELISA-S were confirmed by SN testing, and the specificity of SN was estimated at 100% over thousands of blood donors sampled in 2017–2018 when samples with a titer ≥ 40 were considered to be positive [6]. In addition, all positive SN results were confirmed in multiple replicates. Thus, also we can’t exclude potential misclassifications of some participants, it is unlikely that all of them were false positive results, and detailed investigation suggested compatible history of exposure in several participants. On the opposite, it should be notice that our highly specific selection of participants might lack sensitivity and have led to excluding truly infected participants or early infected participants with waning immunity. Altogether our findings are in line with the reported Italian study [4] and suggest earlier than reported SARS-CoV-2 circulation in Europe.